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Minimap2
4.7
Free Minimap2 is highly regarded for its speed and accuracy in sequence alignment, particularly for long reads and splice-aware alignment.
A versatile pairwise aligner for genomic and spliced nucleotide sequences.
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Refined 2/22/2026
About Minimap2
Minimap2 is a fast sequence alignment program designed for aligning DNA or mRNA sequences against a reference database. It excels at handling long, noisy reads generated by PacBio or Oxford Nanopore sequencing technologies, as well as short reads from Illumina platforms. The tool uses minimizers to index the reference genome, enabling efficient identification of potential alignment locations. It supports various alignment modes, including genomic read mapping, splice-aware alignment for RNA-seq data, assembly-to-assembly alignment, and finding overlaps between long reads. Minimap2's speed and accuracy make it suitable for large-scale genomic analyses, assembly polishing, and comparative genomics, providing biologically meaningful alignments ready for downstream analyses.
Core Capabilities
Minimap2 is a fast sequence alignment program designed for aligning DNA or mRNA sequences against a reference database.
Main Tasks
Read Mapping
Explore all tools that specialize in read mapping. This domain focus ensures Minimap2 delivers optimized results for this specific requirement.
